protvista-uniprot 2.12.2 → 2.13.0

package/dist/es/protvista-variation-graph-adapter.js

@@ -0,0 +1,46 @@
+export const transformData = (data) => {
+    if (data.sequence && data.features.length) {
+        const variants = data.features.map((variant) => {
+            var _a;
+            return ({
+                ...variant,
+                accession: (_a = variant.genomicLocation) === null || _a === void 0 ? void 0 : _a.join(", "),
+                start: variant.begin,
+            });
+        });
+        const total = new Uint8ClampedArray(data.sequence.length);
+        const diseaseTotal = new Uint8ClampedArray(data.sequence.length);
+        for (const { start, association } of variants) {
+            const index = +start;
+            // skip if the variant is outside of bounds
+            // eslint-disable-next-line no-continue
+            if (index < 1 || index > data.sequence.length)
+                continue;
+            // eslint-disable-next-line no-plusplus
+            total[index]++;
+            // eslint-disable-next-line no-continue
+            if (!association)
+                continue;
+            const hasDisease = association.find((association) => association.disease === true);
+            // eslint-disable-next-line no-plusplus
+            if (hasDisease)
+                diseaseTotal[index]++;
+        }
+        const graphData = [
+            {
+                name: 'variant',
+                range: [0, Math.max(Math.max(...total), Math.max(...diseaseTotal))],
+                color: 'darkgrey',
+                values: [...total].map((value, index) => ({ position: index, value: value })),
+            },
+            {
+                name: 'disease causing variant',
+                range: [0, Math.max(Math.max(...total), Math.max(...diseaseTotal))],
+                color: 'red',
+                values: [...diseaseTotal].map((value, index) => ({ position: index, value: value })),
+            },
+        ];
+        return graphData;
+    }
+};
+//# sourceMappingURL=protvista-variation-graph-adapter.js.map

package/dist/es/protvista-variation-graph-adapter.js.map

@@ -0,0 +1 @@
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package/dist/es/styles/protvista-styles.js

@@ -1,9 +1,5 @@
 import { css } from 'lit-element';
 export default css `
-  protvista-tooltip a {
-    text-decoration: underline;
-    color: #fff;
-  }
   .track-content {
     width: 80vw;
   }
@@ -26,16 +22,11 @@ export default css `
 
   .category-label,
   .track-label,
-  .action-buttons,
+  .nav-track-label,
   .credits {
     width: 20vw;
     padding: 0.5em;
-  }
-
-  .action-buttons {
-    display: flex;
-    justify-content: flex-end;
-    align-items: flex-end;
+    line-height: normal;
   }
 
   .category-label {
@@ -73,11 +64,11 @@ export default css `
     background-color: #d9faff;
   }
 
-  protvista-track {
+  nightingale-track {
     border-top: 1px solid #d9faff;
   }
 
-  protvista-navigation {
+  nightingale-navigation {
     .handle {
       fill: darkgrey;
       stroke: black;
@@ -86,6 +77,10 @@ export default css `
     }
   }
 
+  nightingale-filter {
+    font-size: 0.8rem;
+  }
+
   .feature {
     cursor: pointer;
   }

package/dist/es/styles/protvista-styles.js.map

@@ -1 +1 @@
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+{"version":3,"file":"protvista-styles.js","sourceRoot":"","sources":["../../../src/styles/protvista-styles.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,GAAG,EAAE,MAAM,aAAa,CAAC;AAElC,eAAe,GAAG,CAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqFjB,CAAC"}